Locus 7589

Sequence ID dm3.chr3L
Location 15,726,521 – 15,726,596
Length 75
Max. P 0.969300
window10445 window10446

overview

Window 5

Location 15,726,521 – 15,726,596
Length 75
Sequences 4
Columns 78
Reading direction forward
Mean pairwise identity 83.44
Shannon entropy 0.26898
G+C content 0.34832
Mean single sequence MFE -14.75
Consensus MFE -9.29
Energy contribution -10.22
Covariance contribution 0.94
Combinations/Pair 1.14
Mean z-score -2.24
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.67
SVM RNA-class probability 0.781132
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15726521 75 + 24543557
GUGGCAGGCAGACAAACAAACCUGCACUGUAAAAACCA---GAAAAGUGAUACAAAAAUUACACAUGUUGAUAUAAAG
(((((((((((..........)))).))))........---.....(((((......))))).)))............ ( -12.90, z-score =  -1.42, R)
>droSim1.chr3L 15065366 75 + 22553184
GUGGCAGGCAGACAAACAAAUCUGCACUGAAAAAAAGA---GAAAUGUGUUAAUAAAAUAACACAUGUUGAUAUAAAU
....((((((((........))))).))).........---...((((((((......))))))))............ ( -16.80, z-score =  -3.73, R)
>droSec1.super_0 7837522 78 + 21120651
GUGGCAGGCAGACAAACAAAUCUGCACUGAAAAAAAAAACAGAAAUGUGUUAAGAAAAUAACACAUGUUGAUAUAAAU
....((((((((........))))).)))..........(((..((((((((......)))))))).)))........ ( -17.40, z-score =  -3.94, R)
>droYak2.chr3L 18277572 74 + 24197627
GUGGCAGGCAGACAAACAAAUGUGCACUGGAAAAACCA---GAAGAGUGUAAAGGAAAUGGUACAUGUUG-UAUGAGU
........((.((((....((((((.((((.....)))---)....((.........)).)))))).)))-).))... ( -11.90, z-score =   0.12, R)
>consensus
GUGGCAGGCAGACAAACAAAUCUGCACUGAAAAAAACA___GAAAAGUGUUAAGAAAAUAACACAUGUUGAUAUAAAU
....((((((((........))))).))).................((((((......)))))).............. ( -9.29 = -10.22 +   0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 15,726,521 – 15,726,596
Length 75
Sequences 4
Columns 78
Reading direction reverse
Mean pairwise identity 83.44
Shannon entropy 0.26898
G+C content 0.34832
Mean single sequence MFE -13.90
Consensus MFE -10.81
Energy contribution -12.12
Covariance contribution 1.31
Combinations/Pair 1.07
Mean z-score -2.35
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.81
SVM RNA-class probability 0.969300
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15726521 75 - 24543557
CUUUAUAUCAACAUGUGUAAUUUUUGUAUCACUUUUC---UGGUUUUUACAGUGCAGGUUUGUUUGUCUGCCUGCCAC
..((((((......))))))....((((..(((....---.)))...))))(.((((((..........))))))).. ( -12.60, z-score =  -0.63, R)
>droSim1.chr3L 15065366 75 - 22553184
AUUUAUAUCAACAUGUGUUAUUUUAUUAACACAUUUC---UCUUUUUUUCAGUGCAGAUUUGUUUGUCUGCCUGCCAC
............((((((((......))))))))...---.........(((.((((((......))))))))).... ( -18.50, z-score =  -4.93, R)
>droSec1.super_0 7837522 78 - 21120651
AUUUAUAUCAACAUGUGUUAUUUUCUUAACACAUUUCUGUUUUUUUUUUCAGUGCAGAUUUGUUUGUCUGCCUGCCAC
............((((((((......))))))))...............(((.((((((......))))))))).... ( -18.50, z-score =  -4.62, R)
>droYak2.chr3L 18277572 74 - 24197627
ACUCAUA-CAACAUGUACCAUUUCCUUUACACUCUUC---UGGUUUUUCCAGUGCACAUUUGUUUGUCUGCCUGCCAC
...((.(-(((.((((....................(---(((.....))))...)))))))).))............ (  -6.00, z-score =   0.76, R)
>consensus
AUUUAUAUCAACAUGUGUUAUUUUCUUAACACAUUUC___UGGUUUUUUCAGUGCAGAUUUGUUUGUCUGCCUGCCAC
..............((((((......)))))).................(((.((((((......))))))))).... (-10.81 = -12.12 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:29:44 2011